RnoINT0121273 @ rn6
Intron Retention
Gene
ENSRNOG00000003649 | Qsox1
Description
quiescin sulfhydryl oxidase 1 [Source:RGD Symbol;Acc:68957]
Coordinates
chr13:73423397-73425163:-
Coord C1 exon
chr13:73424937-73425163
Coord A exon
chr13:73424086-73424936
Coord C2 exon
chr13:73423397-73424085
Length
851 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
CACCAAATTCTGTTTTTCAGCTT
3' ss Score
7.36
Exon sequences
Seq C1 exon
GTGCTCTGAGCGAGGACCCCCAATTCCCCAAGGTGCAGTGGCCACCCCGTGAGCTGTGTTCTGCCTGTCACAATGAAGTCAACGGACAAGTGCCTTTGTGGGACCTCGGTGCCACCCTCAACTTTCTCAAGGCTCACTTCTCCCCAGCAAACATCGTCAGAGACCCTCCTGCACCTGGACCAGCATCCCGGAGGGGCACCCAGGATCCAGAAGCTTCCCCCAACCTG
Seq A exon
GTAATGGATACATTAAAACTGGAGACCGGGAATTCAGTGCTGGGCCATGAGCAGGCTGCTTCTGCAGCATCCCCGGGAGCCACTGCCCTAGATGTACCAGCTGGGAAGCCTGAAGCAAGTGGTCCCCAGGAACTAAACGCAGGCCTCAGTATGGGTGGAGCGTCACCAGGGCAGGGCCCTCCTGAGCACACGGAAGAGCTTCTGAGGGATGTGCAGGAGAATGCCCAGGGGCAGCAACACTTGAGCAAGAGAGACACTGAAGCCTTATTGCTGCCTGAGGTGAACCACCTCCAAGGCCCTTTAGCGCCCAGGCGAGGCGGCCACAGCCCCAAGCAGCTAGCCAGTATACTCGAAGGAGAGCCAGAGGCCCTAGCTATACAGGGCCGACGCCAGTGGCTCCAGGTTCTGGGAGGAGGAGTTTCCTTCCTGGACATTAGCCTCTGTGTGGGGCTCTACTCTGTGTCCTTCATGGGCTTGCTGGCCATGTATACCTACTTCCGGGCCAGGATGAGAACCCCCAAGGGCCATGTTAGTTACCCCACAGCCTGAACTGCCCAGCAAAGGACCGAGAAGGAGCTGCTGTCTATGGGGTGTTTTGTTTTTTGCCCACTGGCCCCCTTGCTGCCTTTCTACCCCCTGTCCCATTGTCTGGCTTAGGAGAGTGGGAAGTCCAAGAAAGTGAGTTGTTGCAGTGAACCCTGGCGTCTACTGTGAGGATTCCATAGACAAAACAGAAACAGGGTGCTGGTCTGGCCTGGCCAGCATGGGGTAGGAGCAGCCTAATGCAGGGCTCACAGGGCTCGCAGGGCTCCGGGCTTCTGGGAGGCTCAGCACCAAATTCTGTTTTTCAG
Seq C2 exon
CTTTTGTGAAGCCCTGCCCCATTCCTGCTGAAGTCTCAGTGTCTCCTGCTTGGCCTTGGCCTTGAACTGAGGCAAACAAGTCCAGAGTTTCCAAGGTTTCTCATCCAGAGGAGAGTATCGGGGCGGGGTGGGCAGGGGTGGACCTCCTCACGCCTTCTGAGGTTGTCCACTTCCCTCCCTCTCAACATGAAGAAAACCGCATCCCTTCCGGCCTTCTCTGGCCTACCCAGCTCCAGCACCTCAGCTGTGGTGGGGTCTGGGAGCCTCAGGAAATGACTCTGGTCACCCAGGCTCACAGTGGGGTTTCTGCTGCAAGAGTGTAGCTCGAGGTGGTGTGGTTTGGCAGGCTGGAGGGGGACAGTTGCCGGACTGTGGGTGCAGCGCTTGCTTGGTGGTAGGGGAAAGGGGGTGGGTGATGCTGGGGTCTGGAGTGCCTTAGTCCTGAGCTACCTGTGAGAGGGCAGACTCCTCTCTGGGCTGGATGCTTGTCTCTTACTTTGGTCTCTAAAATCAATGCTAACTGGGGGGTGTGGAAGGTGCTAGGTTGAGAGCAGTAAGCAGAATGTCCCTCTCTCCTGGCTGGTTCCACGGCTGGCAGGAGGGGGTGGAGAGACCGGCTCACGTGCTTCATTCCCACCAGTTCCTACTGCTTGGGAGGGATGTGGAATAAAATTATTTTTGTTAAGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003649:ENSRNOT00000005052:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.479 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF047778=Evr1_Alr=PD(14.9=19.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCGTCAGAGACCCTCCTG
R:
AGTCATTTCCTGAGGCTCCCA
Band lengths:
355-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]